SG190335A1 - Plasmodiophora brassicae-resistant brassica plant, seeds and plant parts thereof and methods for obtaining the same - Google Patents
Plasmodiophora brassicae-resistant brassica plant, seeds and plant parts thereof and methods for obtaining the same Download PDFInfo
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- 241001503436 Plasmodiophora brassicae Species 0.000 title claims abstract description 34
- 241000196324 Embryophyta Species 0.000 title claims description 86
- 238000000034 method Methods 0.000 title claims description 23
- 230000002068 genetic effect Effects 0.000 claims abstract description 16
- 239000012634 fragment Substances 0.000 claims description 61
- 240000007124 Brassica oleracea Species 0.000 claims description 24
- 235000011301 Brassica oleracea var capitata Nutrition 0.000 claims description 16
- 240000003259 Brassica oleracea var. botrytis Species 0.000 claims description 12
- 244000178937 Brassica oleracea var. capitata Species 0.000 claims description 12
- 235000011299 Brassica oleracea var botrytis Nutrition 0.000 claims description 10
- 235000003899 Brassica oleracea var acephala Nutrition 0.000 claims description 8
- 235000017647 Brassica oleracea var italica Nutrition 0.000 claims description 8
- 235000001169 Brassica oleracea var oleracea Nutrition 0.000 claims description 8
- 241001503464 Plasmodiophora Species 0.000 claims description 8
- 241001332183 Brassica oleracea var. sabauda Species 0.000 claims description 6
- 235000013399 edible fruits Nutrition 0.000 claims description 6
- 244000281940 Brassica oleracea var. costata Species 0.000 claims description 5
- 235000001171 Brassica oleracea var gongylodes Nutrition 0.000 claims description 4
- 244000304217 Brassica oleracea var. gongylodes Species 0.000 claims description 4
- 244000308180 Brassica oleracea var. italica Species 0.000 claims description 4
- 235000004214 Brassica oleracea var. sabauda Nutrition 0.000 claims description 4
- 235000000133 Brassica oleracea var costata Nutrition 0.000 claims description 3
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- 244000308368 Brassica oleracea var. gemmifera Species 0.000 claims description 3
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- C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
- C12N15/09—Recombinant DNA-technology
- C12N15/63—Introduction of foreign genetic material using vectors; Vectors; Use of hosts therefor; Regulation of expression
- C12N15/79—Vectors or expression systems specially adapted for eukaryotic hosts
- C12N15/82—Vectors or expression systems specially adapted for eukaryotic hosts for plant cells, e.g. plant artificial chromosomes (PACs)
- C12N15/8241—Phenotypically and genetically modified plants via recombinant DNA technology
- C12N15/8261—Phenotypically and genetically modified plants via recombinant DNA technology with agronomic (input) traits, e.g. crop yield
- C12N15/8271—Phenotypically and genetically modified plants via recombinant DNA technology with agronomic (input) traits, e.g. crop yield for stress resistance, e.g. heavy metal resistance
- C12N15/8279—Phenotypically and genetically modified plants via recombinant DNA technology with agronomic (input) traits, e.g. crop yield for stress resistance, e.g. heavy metal resistance for biotic stress resistance, pathogen resistance, disease resistance
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- A—HUMAN NECESSITIES
- A01—AGRICULTURE; FORESTRY; ANIMAL HUSBANDRY; HUNTING; TRAPPING; FISHING
- A01H—NEW PLANTS OR NON-TRANSGENIC PROCESSES FOR OBTAINING THEM; PLANT REPRODUCTION BY TISSUE CULTURE TECHNIQUES
- A01H6/00—Angiosperms, i.e. flowering plants, characterised by their botanic taxonomy
- A01H6/20—Brassicaceae, e.g. canola, broccoli or rucola
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Abstract
The present invention relates to a Plasmodiophora brassicae-resistant Brassica plant. The present invention relates more specifically to a Plasmodiophorabrassicae-resistant Brassica plant comprising in its genome two or more genetic factors imparting resistance, wherein the presence of the genetic factors imparting resistance can be determined by the presence of a Quantitative Trait Locus (QTL1) and a Quantitative Trait Locus 3 (QTL3) and/or a Quantitative Trait Locus 5 (QTL5).
Description
PLASMODIOPHORA BRASSICAE-RESISTANT BRASSICA PLANT, SEEDS AND
PLANT PARTS THEREOF AND METHODS FOR OBTAINING THE SAME
The present application relates to a
Plasmodiophora brassicae-resistant Brassica plant, in particular a Plasmodiophora brassicae-resistant Brassica oleracea plant and to seeds, fruits and/or plant parts thereof. According to a further aspect, the invention relates to methods for obtaining Plasmodiophora brassicae- resistant Brassica plants. In addition, the present invention relates to Quantitative Trait Loci (QTLs) which provide the present Plasmodiophora brassicae resistance and molecular markers, in particular Random Amplified
Microsatellite Polymorphism (RAMP) markers, for identifying the present Quantitative Trait Loci (QTLs).
The soil-bound micro-organism Plasmodiophora brassicae is the cause of clubroot in crucifers (Brassicaceae). Brassica is a plant genus in the family
Brassicaceae (formerly Cruciferae). The members of this genus are collectively referred to as cabbage or mustard.
The genus Brassica comprises a number of important agricultural and horticultural crops, including rape, cauliflower, red cabbage, savoy cabbage, white cabbage, oxheart cabbage, curly cale cabbage, broccoli, Brussels sprouts, Chinese cabbage, turnip cabbage and Portuguese cabbage (tronchuda).
Almost all parts of the plants are used as food, such as the roots (turnip), stalks (turnip cabbage), leaves (white and red cabbage, savoy cabbage), axillary buds (sprouts), flowers (cauliflower, broccoli), seedlings and seeds (rape). Some species with white or purple flowers or distinct colour or shape of the leaves are further cultivated for ornamental purposes.
Infestation by Plasmodiophora brassicae takes place via the root hairs of cabbage plants. When a zoospore of Plasmodiophora brassicae has penetrated the root, this spore induces the cells around the infection site to hypertrophy (cell enlargement) and hyperplasia (cell division). The hormonal stimulus for these processes diffuses further in the plant, so that these structural changes can also take place in non-affected cells.
Plasmodiophora brassicae does not form hyphae in the plant, but appears in the form of a plasmodium which occurs intracellularly in the tissue. This plasmodium brings about further damage to the roots by forming zoosporangia, from which new zoospores are released. The disease is characterized by highly swollen roots which, in the further progress of the disease process, fall apart due to rotting.
The formed oospores of the pathogen are released here in the ground. Above-ground parts of the host plant further lag behind in growth because of an impeded water and mineral take-up due to the damaged root system.
It is assumed that 10% of the cabbage-growing area world-wide is infected with Plasmodiophora brassicae. This results in considerable annual loss of yield.
In view of the importance of Brassica plants for food production and the economic damage caused by the pathogen Plasmodiophora brassicae, the present invention has for its object to provide a Plasmodiophora brassicae- resistant Brassica plant and methods for obtaining same.
The need for a Plasmodiophora brassicae-resistant
Brassica plant for food production is further underlined by the absence of adequate, cost effective and efficient means of combatting this disease, such as the unavailability of pesticides for this pathogen. Plasmodiophora brassicae is one of the most important pathogens on crucifers world-wide.
The above stated object of the present invention, among others, is achieved according to a first aspect by providing a Plasmodiophora brassicae-resistant Brassica plant as according to the appended claim 1.
The above stated object of the present invention, among others, is specifically provided according to a first aspect by a Plasmodiophora brassicae-resistant Brassica plant comprising in its genome two or more genetic factors imparting resistance, wherein the presence of the genetic factors imparting resistance can be determined by the presence of a Quantitative Trait Locus 1 (QTL1l) and a
Quantitative Trait Locus 3 (QTL3) and/or a Quantitative
Trait Locus 5 (QTL5), wherein
Quantitative Trait Locus 1 (QTL1) is characterized by one or more RAMP markers chosen from the group consisting of a fragment of 292-296 bp with primer combination SEQ ID No:l (1.1) and 7; a fragment of 69-73 bp with primer combination
SEQ ID No:2 (1.2) and 7; a fragment of 113-117 bp with primer combination SEQ ID No:3 (1.3) and 7; a fragment of 214-217 bp or 215-219 bp with primer combination SEQ ID No:4 (1.4) and 7 and a fragment of 201-205 bp with primer combination SEQ ID No: 24 (1.5) and 7;
Quantitative Trait Locus 3 (QTL3) is characterized by one or more RAMP markers chosen from the group consisting of a fragment of 157-169 bp with primer combination SEQ ID No:9 (3.1) and 7; a fragment of 133-137 bp with primer combination SEQ ID No:10 (3.2) and 7; a fragment of 218-222 bp with primer combination SEQ ID No:11 (3.3) and 7; and a fragment of 73-77 bp with primer combination SEQ ID No:12 (3.4) and 7;
Quantitative Trait Locus 5 (QTLb) is characterized by one or more RAMP markers chosen from the group consisting of a fragment of 274-278 bp with primer combination SEQ ID No:16 (5.1) and 7; a fragment of 533-537 bp with primer combination SEQ ID No:17 (5.2) and 7; a fragment of 333-341 bp with primer combination SEQ ID No:18 (5.3) and 7; and a fragment of 217-225 bp with primer combination SEQ ID No:19 (5.4) and 7.
It should be noted that in accordance with the above definition of a plant according to the present invention, the present invention relates to Brassica plants comprising QTL1 and QTL3, plants comprising QTL1 and QTLb and plants comprising QTL1, QTL3 and QTLb5.
According to this first aspect of the present invention a Plasmodiophora brassicae-resistant Brassica plant is provided. The present plant comprises a resistance to all four pathotypes of Plasmodiophora brassicae. In other words, the present plant comprises resistance to the
Plasmodiophora brassicae pathotypes 0, I, II and III.
The primer no. 7 as used in the present context is a commercially available RAPD primer (Operon RAPD 10-mer kits A-01 up to and including BH-20).
According to a preferred embodiment of the present invention, the present plant comprises in its genome the
Quantitative Trait Locus 1 (QTL1l) and the Quantitative Trait
Locus 3 (QTL3) and/or the Quantitative Trait Locus 5 (QTL5) as defined above.
According to a further preferred embodiment, the present plant is homozygous for the Quantitative Trait Locus
1 (QTL1), the Quantitative Trait Locus 3 (QTL3) and/or the
Quantitative Trait Locus 5 (QTLD).
According to another preferred embodiment of the invention, the present plant also comprises in its genome 5 three or more factors imparting resistance, wherein the presence of the genetic factors imparting resistance can be determined by the presence of a Quantitative Trait Locus 2 (QTL2), a Quantitative Trait Locus 4 (QTL4) and/or a
Quantitative Trait Locus 6 (QTL6), wherein
Quantitative Trait Locus 2 (QTL2) is characterized by one or more RAMP markers chosen from the group consisting of a fragment of 740-750 bp with primer combination SEQ ID No:5 (2.1) and 7; a fragment of 141-145 bp with primer combination SEQ ID No:6 (2.2) and 7; a fragment of 167-171 bp with primer combination SEQ ID No:7 (2.3) and 7; and a fragment of 293-297 bp with primer combination SEQ ID No:8 (2.4) and 7;
Quantitative Trait Locus 4 (QTL4) is characterized by one or more RAMP markers chosen from the group consisting of a fragment of 314-318 bp with primer combination SEQ ID No:13 (4.1) and 7; a fragment of 240-244 bp with primer combination SEQ ID No:14 (4.2) and 7; and a fragment of 112- 116 bp with primer combination SEQ ID No:15 (4.3) and 7; and
Quantitative Trait Locus 6 (QTL6) is characterized by one or more RAMP markers chosen from the group consisting of a fragment of 201-205 bp with primer combination SEQ ID No:20 (6.1) and 7; a fragment of 291-295 bp with primer combination SEQ ID No:21 (6.2) and 7; a fragment of 183-187 bp with primer combination SEQ ID No:22 (6.3) and 7; and a fragment of 375-379 bp with primer combination SEQ ID No:23 (6.4) and 7.
It should be noted that in accordance with the above definition of a plant according to the present invention, the present invention relates to Brassica plants comprising QTL1 and QTL3, plants comprising QTL1 and QTLb and plants comprising QTL1, QTL3 and QTL5 and said plant further comprise QTL2, QTL4 or QTL6, thus plants comprising
QTL1, QTL3 and QTLZ2; QTL1, QTL3 and QTL4; QTLI1, QTL3 and
QTL6; plants comprising QTL1, QTLS5 and QTL2; QTL1, QTL5 and
QTL4; QTL1l, QTLS and QTL6 and plants comprising QTL1, QTL3,
QTLS and QTL2; QTL1, QTL3, QTL5 and QTL4; QTL1, QTL3, QTL5 and QTL6; and plants comprising QTLs 1 to 6 or 1 to 5 or 1 to 4.
According to another preferred embodiment, the plant according to the invention further comprises in its genome the Quantitative Trait Locus 2 (QTL2), the
Quantitative Trait Locus 4 (QTL4) and/or the Quantitative
Trait Locus 6 (QTL6) as defined above.
According to a preferred embodiment of the invention, the present Quantitative Trait Locus 1 (QTL1l), 2 (QTL2), 3 (QTL3), 4 (QTL4), 5 (QTL5) and/or 6 (QTL6) are characterized by two or more RAMP markers per marker as defined above.
According to a preferred embodiment of the invention, the present Quantitative Trait Locus 1 (QTL1l), 2 (QTL2), 3 (QTL3), 4 (QTL4), 5 (QTL5) and/or 6 (QTL6) are characterized by three or more RAMP markers per QTL as defined above.
According to a preferred embodiment of the invention, the present Quantitative Trait Locus 1 (QTL1), 2 (QTL2), 3 (QTL3), 5 (QTL5) and/or 6 (QTL6) are characterized by four or more RAMP markers per QTL as defined above.
According to an especially preferred embodiment of the present invention, the presence of present QTL1 is indicated by 5 RAMP markers as defined above.
According to still an especially preferred embodiment, the presence of the present QTLs is indicated by all markers defined.
According to a preferred embodiment of the present invention, the plant is a Brassica oleracea plant.
According to a further preferred embodiment of the present invention, the plant is a Brassica plant chosen from the group consisting of B. oleracea convar. botrytis var. botrytis (cauliflower, romanesco broccoli), B. oleracea convar. botrytis var. cymosa (broccoli), B. oleracea convar. botrytis var. asparagoides (sprouting broccoli), B. oleracea convar. oleracea var. gemnifera (Brussels sprout),
B. oleracea convar. capitata var. alba (white cabbage, oxheart cabbage), B. oleracea convar. capitata var. rubra (red cabbage), B. oleracea convar. capitata var. sabauda (savoy cabbage), B. oleracea convar. acephala var. sabellica (curly cale cabbage), B. oleracea convar. acephela var. gongyloides (turnip cabbage) and B. oleracea var. tronchuda syn. costata (Portuguese cabbage).
The plants according to the present invention as outlined above preferably have a Plasmodiophora brassicae- resistance derived from a plant with deposit number NCIMB 41685 or NCIMB 41686 obtainable from NCIMB Ltd, Ferguson
Building, Craibstone Estate, Bucksburn, Aberdeen AB21 9YA,
England.
The plants according to the present invention as outlined above preferably have a Plasmodiophora brassicae- resistance which is found in plants with deposit number
NCIMB 41685 or NCIMB 41686 obtainable from NCIMB Ltd,
Ferguson Building, Craibstone Estate, Bucksburn, Aberdeen
AB21 9YA, England.
The plants according to the present invention as outlined above preferably are derived from a plant with the deposit number NCIMB 41685 or NCIMB 41686 obtainable from
NCIMB Ltd, Ferguson Building, Craibstone Estate, Bucksburn,
Aberdeen AB21 9YA, England.
An advantageous plant according to the present invention is a plant with deposit number NCIMB 41685 or
NCIMB 41686, obtainable from NCIMB Ltd, Ferguson Building,
Craibstone Estate, Bucksburn, Aberdeen AR21 9YA, England.
In view of the advantageous present resistance of the Brassica plant according to the invention, the invention also relates according to a further aspect to seeds, fruits and/or plant parts of the present Brassica plant which comprise the Quantitative Trait Locus 1 (QTL1) and the
Quantitative Trait Locus 3 (QTL3) and/or the Quantitative
Trait Locus 5 (QTL5) as defined above.
According to an embodiment of this aspect, the seeds, fruits and/or plant parts of the present Brassica plant also comprise the Quantitative Trait Locus 2 (QTL2), the Quantitative Trait Locus 4 (QTL4) and/or the
Quantitative Trait Locus 6 (QTL6) as defined above.
According to a further aspect, the present invention also relates to a method for providing a
Plasmodiophora brassicae-resistant Brassica oleracea comprising introgression, or the genomic combination, of the
Quantitative Trait Locus 1 (QTL1l) and the Quantitative Trait
Locus 3 (QTL3) and/or the Quantitative Trait Locus 5 (QTLS5) as defined above, in a Brassica plant.
According to a particularly recommended embodiment of this aspect, the method further comprises of introgression, or genomic combining, of the Quantitative
Trait Locus 2 (QTL 2), the Quantitative Trait Locus 4 (QTL 4) and/or the Quantitative Trait Locus 6 (QTL 6) as defined above in a Brassica plant.
According to another preferred embodiment of this aspect, the present method further comprises molecular biological techniques for determining the presence of one or more of the RAMP markers as defined above in a Brassica plant.
According to a preferred embodiment of this aspect, the Brassica plant is homozygous for the
Quantitative Trait Loci 1 (QTL1), 3 (QTL3) and 5 (QTLS5).
According to yet another aspect, the present invention relates to the use of a Quantitative Trait Locus 1 (QTL1), 2 (QTL2), 3 (QTL3), 4 (QTL4), 5 (QTL5) and/or 6 (QTL6) as defined above for providing a Plasmodiophora brassicae-resistant Brassica plant, preferably a Brassica oleracea plant, such as a plant according to the present invention.
According to yet another aspect, the present invention relates to the use of one or more primers selected from the group consisting of SEQ ID NOs: 1-24 (primers 1.1, 1.2, 1.3, 1.4, 1.5, 2.1, 2.2, 2.3, 2.4, 3.1, 3.2, 3.3, 3.4, 4.1, 4.2, 4.3, 5.1, 5.2, 5.3, 5.4, 6.1, 6.2, 6.3, and 6.4) for providing a Plasmodiophora brassicae-resistant Brassica plant, such as a plant according to the present invention.
According to yet another aspect, the present invention relates to the use of a plant according to the present invention, or of seeds, fruits and/or plant parts according to the present invention for providing a
Plasmodiophora brassicae-resistant Brassica plant.
The present invention will be further described hereinbelow on the basis of an example of a preferred embodiment. It should however be understood that this example is provided solely for illustrative purposes and not to limit in any way the invention as described above.
The breeding aimed at Plasmodiophora brassicae resistance in Brassica oleracea 1s a complex process.
Multiple pathotypes of Plasmodiophora brassicae have been described and resistance occurs only rarely in Brassica oleracea.
In order to obtain the Brassica oleracea plant described here with a broad resistance to Plasmodiophora brassicae use is made of a genetic source having a dominant resistance. In addition, a genetic source is used in which the resistance is determined multigenically. Via a backcrossing program the resistances are introduced into various genetic backgrounds (susceptible parent lines).
Fach crossing with a susceptible plant is followed by an inbred generation. The progeny of this generation must be tested in a greenhouse test for their resistance level.
It therefore always takes a minimum of two years per generation to see the effect of a new crossing in the case of an annual plant and a minimum of 3 years in the case of a biannual plant.
The resistance tests were performed by bringing the roots of young plants into contact with a clubroot inoculum during growth and development. This inoculum was prepared, one day before the test was started, by finely grinding 150 grams of frozen cabbage roots from defined isolates with clubroot infestation and mixing this with 4000 grams of potting compost. Water was subsequently added to the mixture until it was wholly saturated. The inoculum was stored for 1 day at 20°C, so that the P. brassicae spores could actively spread through the soil/water mixture. On the day of inoculation, 5 day-old seedlings of the material to be tested were transplanted into 1 cc of the soil/water/P. brassicae mixture. For this purpose the inoculum doses were laid out shortly before the transplanting operation on a layer of 10 cm potting compost arranged in a greenhouse staging. The plants were subsequently cultivated for 6 weeks in a lit greenhouse with a day/night rhythm of respectively 16 and 8 hours and a day/night temperature of 20/16°C.
Prior to the assessment the plants were carefully harvested and washed clean. Because this does not involve a black and white resistance reaction, the level was expressed as a quantitative value {0 (wholly resistant) to 9 (wholly susceptible) }. Roots of category 9 are highly susceptible and displayed severe swelling. Roots of category 0 are wholly free of swelling. It was found that the resistance in the various genetic backgrounds did not show simple
Mendelian behaviour but a phenotypic gradation within a normal distribution. This distribution can shift sharply to the susceptible side, implying that the inbred populations from crossings between the resistant source and various susceptible parent lines produce different percentages of resistant plant.
On the basis of the segregation ratios and the differences in resistance levels of the plants in the populations it was found that the resistance level of the plant is determined by multiple genetic factors. In order to map a quantitative trait with DNA markers, use is usually made of QTL analyses. QTLs are independent chromosome regions which, coupled to the underlying genes, together explain or define a trait.
Using DNA markers a genome-spanning QTL analysis was performed on Brassica oleracea crossing populations with diverse genetic backgrounds. Using plants of these different populations greenhouse tests were carried out in order to determine the resistance level of the individual plants. By combining the data of the marker analysis with that of the greenhouse tests scores it was possible to identify the QTLs which are responsible for the Plasmodiophora brassicae resistance.
A total of six independently inheritable QTLs have been identified which contribute to greater or lesser extent toward the level of resistance. The variation in the resistance levels between the plants which is observed in the greenhouse test is caused by the presence and/or absence of the QTLs. One of these can be designated the main QTL (QTL 1) which must always be present to obtain any broadly effective resistance at all.
Just as QTL 1, the QTLs 3 and 5 contribute toward the resistance level, and although this contribution is not as great as that of the main QTL it is also independent of the genetic background. The other three QTLs (QTL 2, 4 and 6) possibly have a modifying role which causes variation in resistance levels.
The use of DNA markers coupled to the QTLs 1 to 6 has made it possible to select plants which are resistant to
Plasmodiophora brassicae. Selection of traits located at multiple regions requires large selection populations. In an inbred population made from an individual originating from a cross between a resistant and a susceptible plant, the chance is 1:64 that a plant is actually present with the three most important QTLs homozygous from the source.
Selection with DNA markers provides the option of performing repeated backcrossing wherein selection is made for the QTLs involved in clubroot resistance (Marker
Assisted Recurrent Backcross, MARB). In this way one or two years are galned per crossing generation, which means an acceleration of ten to twenty years in the breeding program.
From a disease test plants with a high level of resistance could be obtained, but which have one or more
QTLs in heterozygous form. The use of DNA markers provided the possibility of analysing for clubroot-resistant plants from populations in the breeding program and of making a preselection of the desired plants.
Used as starting material for this preselection were selected plants with desired horticultural quality traits. These plants where partially heterozygous; so that they could serve as parent of a hybrid variety, they had to be made wholly homozygous.
A method of making all introgressions of the QTLs in the acceptor plant homozygous was via induction of dihaploids. The method for inducing dihaploids in Brassica plants is described in various publications (see ref. 1 and ref. 2 for several examples).
The ploidy level of each regenerated plant was determined (Partec CA-II, Partec, Munster) and only dihaploid plants were retained.
The QTLs are each characterized by a number of DNA markers as listed in table 2 which characterize the introgression from the source.
The DNA markers are generated with the RAMP technique. The RAMP technique, wherein an iSSR and a
RAPD-primer are combined, produces band patterns having therein DNA fragments specifically co-segregating with the resistance, whereby a distinction can be made between individuals which do comprise the QTL introgression and individuals which do not comprise the QTL introgression. By mapping the RAMP fragments and phenotyping of the resistance score closely linked RAMP markers are identified which form the QTL, an overview of these markers being given in table 2. The position of the QTL on the ‘linkage group’ involved and the mutual distance of the markers within the QTLs are given in centimorgans (cM).
The general PCR conditions under which the DNA markers were generated are shown in the overview below.
PCR mix for RAMP reaction:
Per reaction ~0.2 ng/pl genomic plant DNA 75 mM Tris-HCl (pH 8.8) 20 mM NH4504 0.01% (v/v) Tween20 2.80 mM MgCl, 0.25 mM dNTPs 0.12 nM forward-primer 0.29 uM reverse-primer 0.04 units/pl Red Hot® DNA Polymerase (ABgene, Epsom)
PCR program RAPD35:
Number of cycles step 1: 2 min 93°C 1 step 2: 30 sec 93°C step 3: 30 sec 40°C step 4: heat at 0.3°C/sec to 72°C step 5: 1 min 30 sec 72°C repeat step 2-5 40 step 6: 5 min 72°C 1
PAGE/Licor
For analysis of the RAMP patterns use was made of a
"Gene ReadIR 4200 DNA analyzer" (Licor Inc.). On the basis of an optimal concentration of 6.5% acryl amide, fragments can be separated down to a single base. In order to make the fragments visible on this system it is necessary to use labelled (IRDye labels) primers. For this purpose a third of the quantity of forward primer was replaced by a labeled primer with the same sequence.
Marker overview
The primers referred to in Table 2 are used to generate the
DNA markers referred to in Table 1.
Table 1: Overview of RAMP markers per QTL
Position on the
RAMP primer Fragment size associated or combination (bp) ‘linkage group’ (cM) [ee [mew we [ee [eww er [ee [ew ee [er [mew wa
Fe [mw we
Table 2: Overview of SEQ ID Nos
Cu ewes
Primer Sequence
No. RAPD (CF [rr [oe ee m erm am crow em ee
CT [or [or remem sm mam ee [or [on emer mm em am ae [7 [ee] we em memes *) Eurofins MWG Operon, AnzingerstraBe 7a, 85560 Ebersberg
Germany
The PCR reactions with the various primer combinations form the QTL-introgression fragments of a specific size (see
Table 1). These DNA markers are characteristic for the QTLs involved. The combination of these DNA markers characterizing the QTL provides indisputable evidence of the presence of the QTL introgression from the Plasmodiophora brassicae-resistant source.
Centimorgan (cM):
Unit for the genetic distance between markers, based on the number of cross-overs per hundred individuals.
DNA marker:
A DNA fragment which is linked to a gene or is located in a chromosome fragment at a known location on the genome, which is used to monitor heritability of this gene or this fragment.
Gel-electrophoresis:
Method for separating molecules (DNA, RNA, protein among others) on the basis of their size, shape or charge, in a matrix (agarose or polyacrylamide) under the influence of an electrical field.
Inbred generation (self-pollination):
Fertilization of an individual with its own pollen
Introgression:
A chromosome fragment of a line which can be introduced by way of crossing into another line.
IRDye labels:
Infrared labels used for Licor imaging systems, the detection of which takes place at 700 nm or 800 nm.
Linkage Group:
A group of genes which are inherited in combination.
MARB:
Marker Assisted Recurrent Backcross: procedure in which a repeated backcrossing of a donor line with a quality line is supported with marker analysis, in order to select in each generation the plants which still have all QTLs for a determined resistance and genotypically correspond most to the quality line.
Monogenic:
Determined by one gene.
Polymerase Chain Reaction (PCR):
An in vitro amplification method for multiplying a specific
DNA fragment. This synthesis reaction makes use of a minimum of one oligonucleotide primer which hybridizes with a DNA fragment, after which a polymerase amplifies the flanking region during successive temperature cycles.
Quantitative Trait Locus (QTL):
Chromosome region(s) which, coupled to one or more gene(s), together explain a quantitative trait.
Random Amplified Microsatellite Polymorphisms (RAMP):
DNA fingerprinting technique based on RAPD and iSSR primers with which polymorphisms between different DNA monsters are detected.
Random Amplified Polymorphic DNA (RAPD) primer:
A 10-mer with a "random" sequence, wherein the GC-content lies between 60% and 70% and wherein the primer ends are not self-complementary.
inter Simple Sequence Repeat (i1iSSR) primer:
A primer designed on the 5' end of an SSR (Single Sequence
Repeat); a DNA fragment consisting of a repetition of 2 or 3 nucleotides with a 4 bp anchor at the 5' end
Backcrossing:
Crossing of an individual with one of the original parents.
PCT
Print Out (Original in Electronic Form) (This sheet is not part of and does not count as a sheet of the international application) 0-1 Form PCT/RO/134 (SAFE)
Indications Relating to Deposited
Microorganism(s) or Other Biological
Material (PCT Rule 13bis) 0-1-1 [Prepared Using PCT Online Filing
Version 3.5.000.225 MT/FOP 20020701/0.20.5.20 0-2 International Application No. 0-3 Applicant's or agent's file reference 4 /2LT68 / 15 1 The indications made below relate to the deposited microorganism(s) or other biological material referred to in the description on: 1-1 page 7 1-2 line 28 1-3 Identification of deposit 1-3-1 Name of depositary institution NCIMB NCIMB ILtd. 1-3-2 Address of depositary institution Ferguson Building , Craibstone Estate ,
Bucksburn, Aberdeen AB21 9YA, United
Kingdom 1-3-3 Date of deposit 14 December 2009 (14.12.2009) 1-3-4 Accession Number NCIMB 41685 1-5 Designated States for Which All des ignat ions
Indications are Made 2 The indications made below relate to the deposited microorganism(s) or other biological material referred to in the description on: 2-1 page 8 2-2 line 1 2-3 Identification of deposit 2-3-1 Name of depositary institution NCIMB NCIMB ILtd. 2-3-2 Address of depositary institution Ferguson Building , Craibstone Estate ,
Bucksburn, Aberdeen AB21 9YA, United
Kingdom 2-3-3 |Date of deposit 14 December 2009 (14.12.2009) 2-3-4 Accession Number NCIMB 41685 2-5 Designated States for Which All des ignat ions
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PCT
Print Out (Original in Electronic Form) (This sheet is not part of and does not count as a sheet of the international application) 3 The indications made below relate to the deposited microorganism(s) or other biological material referred to in the description on: 3-1 page 7 3-2 line 28 3-3 Identification of deposit 3-3-1 Name of depositary institution NCIMB NCIMB Ltd. 3-3-2 |Address of depositary institution Ferguson Building, Craibstone Estate,
Bucksburn, Aberdeen AB21 9YA, United
Kingdom 3-3-3 |Date of deposit 14 December 2009 (14.12.2009) 3-34 Accession Number NCIMB 41686 3-5 Designated States for Which All designations
Indications are Made 4 The indications made below relate to the deposited microorganism(s) or other biological material referred to in the description on: 4-1 page 8 4-2 line 1 4-3 Identification of deposit 4-3-1 Name of depositary institution NCIMB NCIMB Ltd. 4-3-2 |Address of depositary institution Ferguson Building, Craibstone Estate,
Bucksburn, Aberdeen AB21 9YA, United
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The indications made below relate to the deposited microorganism(s) or other biological material referred to in the description on: 5-1 page 8 5-2 line 6 5-3 Identification of deposit 5-3-1 Name of depositary institution NCIMB NCIMB Ltd. 5-3-2 |Address of depositary institution Ferguson Building, Craibstone Estate,
Bucksburn, Aberdeen AB21 9YA, United
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PCT
Print Out (Original in Electronic Form) (This sheet is not part of and does not count as a sheet of the international application) 6 The indications made below relate to the deposited microorganism(s) or other biological material referred to in the description on: 6-1 page 8 6-2 line 6 6-3 Identification of deposit 6-3-1 Name of depositary institution NCIMB NCIMB Ltd. 6-3-2 |Address of depositary institution Ferguson Building, Craibstone Estate,
Bucksburn, Aberdeen AB21 9YA, United
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Bucksburn, Aberdeen AB21 9YA, United
Kingdom 7-3-3 Date of deposit 14 December 2009 (14.12.2009) 7-3-4 Accession Number NCIMB 41685 7-5 Designated States for Which All des ignat ions
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Bucksburn, Aberdeen AB21 9YA, United
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Print Out (Original in Electronic Form) (This sheet is not part of and does not count as a sheet of the international application) 9 The indications made below relate to the deposited microorganism(s) or other biological material referred to in the description on: 9-1 page 25 9-2 line 18 9-3 Identification of deposit 9-3-1 Name of depositary institution NCIMB NCIMB Ltd. 9-3-2 |Address of depositary institution Ferguson Building, Craibstone Estate,
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Bucksburn, Aberdeen AB21 9YA, United
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Bucksburn, Aberdeen AB21 9YA, United
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Print Out (Original in Electronic Form) (This sheet is not part of and does not count as a sheet of the international application) 12 The indications made below relate to the deposited microorganism(s) or other biological material referred to in the description on: 12-1 page 25 12-2 line 23 12-3 Identification of deposit 12-3-1 [Name of depositary institution NCIMB NCIMB Ltd. 12-3-2 |Address of depositary institution Ferguson Building, Craibstone Estate,
Bucksburn, Aberdeen AB21 9YA, United
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Bucksburn, Aberdeen AB21 9YA, United
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Bucksburn, Aberdeen AB21 9YA, United
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Claims (20)
1. Plasmodiophora brassicae-resistant Brassica plant comprising in its genome two or more genetic factors imparting resistance, wherein the presence of the genetic factors imparting resistance can be determined by the presence of a Quantitative Trait Locus 1 (QTL1l) and a Quantitative Trait Locus 3 (QTL3) and/or a Quantitative Trait Locus 5 (QTL5), wherein Quantitative Trait Locus 1 (QTL1l) is characterized by one or more RAMP markers chosen from the group consisting of a fragment of 292-296 bp with primer combination SEQ ID No:l
(1.1) and 7; a fragment of 69-73 bp with primer combination SEQ ID No:2 (1.2) and 7; a fragment of 113-117 bp with primer combination SEQ ID No:3 (1.3) and 7; a fragment of 214-217 bp or 215-219 bp with primer combination SEQ ID No:4
(1.4) and 7 and a fragment of 201-205 bp with primer combination SEQ ID No: 24 (1.5) and 7; Quantitative Trait Locus 3 (QTL3) is characterized by one or more RAMP markers chosen from the group consisting of a fragment of 157-161 bp with primer combination SEQ ID No:9
(3.1) and 7; a fragment of 133-137 bp with primer combination SEQ ID No:10 (3.2) and 7; a fragment of 218-222 bp with primer combination SEQ ID No:11 (3.3) and 7; and a fragment of 73-77 bp with primer combination SEQ ID No:12
(3.4) and 7; Quantitative Trait Locus 5 (QTL5) is characterized by one or more RAMP markers chosen from the group consisting of a fragment of 274-278 bp with primer combination SEQ ID No:16
(5.1) and 7; a fragment of 533-537 bp with primer combination SEQ ID No:17 (5.2) and 7; a fragment of 333-341 bp with primer combination SEQ ID No:18 (5.3) and 7; and a fragment of 217-225 bp with primer combination SEQ ID No:19
(5.4) and 7.
2. Plant as claimed in claim 1, comprising in its genome Quantitative Trait Locus 1 (QTL1) and Quantitative Trait Locus 3 (QTL3) and/or Quantitative Trait Locus 5 (QTLS5) as defined in claim 1.
3. Plant as claimed in claim 1 or claim 2, further comprising in its genome three or more factors imparting resistance, wherein the further presence of the genetic factors imparting resistance can be determined by the presence of a Quantitative Trait Locus 2 (QTL2), a Quantitative Trait Locus 4 (QTL4) and/or a Quantitative Trait Locus © (QTL6), wherein Quantitative Trait Locus 2 (QTL2) is characterized by one or more RAMP markers chosen from the group consisting of a fragment of 740-750 bp with primer combination SEQ ID No:5
(2.1) and 7; a fragment of 141-145 bp with primer combination SEQ ID No:6 (2.2) and 7; a fragment of 167-171 bp with primer combination SEQ ID No:7 (2.3) and 7; and a fragment of 293-297 bp with primer combination SEQ ID No:8
(2.4) and 7; Quantitative Trait Locus 4 (QTL4) is characterized by one or more RAMP markers chosen from the group consisting of a fragment of 314-318 bp with primer combination SEQ ID No:13
(4.1) and 7; a fragment of 240-244 bp with primer combination SEQ ID No:14 (4.2) and 7; and a fragment of 112- 116 bp with primer combination SEQ ID No:15 (4.3) and 7; and
Quantitative Trait Locus 6 (QTL6) is characterized by one or more RAMP markers chosen from the group consisting of a fragment of 201-205 bp with primer combination SEQ ID No:20
(6.1) and 7; a fragment of 291-295 bp with primer combination SEQ ID No:21 (6.2) and 7; a fragment of 183-187 bp with primer combination SEQ ID No:22 (6.3) and 7; and a fragment of 375-379 bp with primer combination SEQ ID No:23
(6.4) and 7.
4. Plant as claimed in any of the claim 3, further comprising in its genome Quantitative Trait Locus 2 (QTL2), Quantitative Trait Locus 4 (QTL4) and/or Quantitative Trait Locus 6 (QTL6).
5. Plant as claimed in any of the claims 1 to 4, wherein the Quantitative Trait Locus 1 (QTL1), 2 (QTLZ2), 3 (QTL3), 4 (QTL4), 5 (QTL5) and/or 6 (QTL6) are characterized by two or more RAMP markers.
6. Plant as claimed in any of the claims 1 to 5, wherein the Quantitative Trait Locus 1 (QTL1), 2 (QTLZ2), 3 (QTL3), 4 (QTL4), 5 (QTL5) and/or 6 (QTL6) are characterized by three or more RAMP markers.
7. Plant as claimed in any of the claims 1 to 6, wherein the Quantitative Trait Locus 1 (QTL1), 2 (QTLZ2), 3 (QTL3), 4 (QTL4), 5 (QTL5) and/or 6 (QTL6) are characterized by four or more RAMP markers.
8. Plant as claimed in any of the claims 1 to 7, wherein the plant is a Brassica oleracea plant.
9. Plant as claimed in any of the claims 1 to 8, wherein the plant is a Brassica plant chosen from the group consisting of B. oleracea convar. botrytis var. botrytis (cauliflower, romanesco broccoli), B. oleracea convar. botrytis var. cymosa (broccoli), B. oleracea convar. botrytis var. asparagoides (sprouting broccoli), B. oleracea convar. oleracea var. gemnifera (Brussels sprout), B. oleracea convar. capitata var. alba (white cabbage, oxheart cabbage), B. oleracea convar. capitata var. rubra (red cabbage), B. oleracea convar. capitata var. sabauda (savoy cabbage), B. oleracea convar. acephala var. sabellica (curly cale cabbage), B. oleracea convar. acephela var. gongyloides (turnip cabbage) and B. oleracea var. tronchuda syn. costata (Portuguese cabbage).
10. Plant as claimed in any of the claims 1 to 9, wherein the Plasmodiophora brassicae-resistance is derived from a plant with deposit number NCIMB 41685 or NCIMB 41686.
11. Plant as claimed in any of the claims 1 to 10, wherein Plasmodiophora brassicae-resistance 1s the resistance of a plant with deposit number NCIMB 41685 or NCIMB 41686.
12. Plant as claimed in any of the claims 1 to 11, wherein the plant derived from a plant with the deposit number NCIMB 41685 or NCIMB 41686.
13. Seeds, fruits and/or plant parts of a Brassica plant as claimed in any of the claims 1 to 13 which comprise Quantitative Trait Locus 1 (QTL1) and Quantitative Trait Locus 3 (QTL3) and/or a Quantitative Trait Locus 5 (QTL5) as defined in claim 1.
14. Method for providing a plant as claimed in any of the claims 1 to 12, comprising introgression, or the genomic combination, of Quantitative Trait Locus 1 (QTL1) and Quantitative Trait Locus 3 (QTL3) and/or Quantitative Trait Locus 5 (QTLS5) as defined in claim 1 in a Brassica plant.
15. Method as claimed in claim 14, further comprising introgression, or the genomic combination, of Quantitative Trait Locus 2 (QTL 2), Quantitative Trait Locus 4 (QTL 4) and/or Quantitative Trait Locus 6 (QTL 6) as defined in claim 3 in a Brassica plant.
16. Method as claimed in claim 14 or claim 15, further comprising molecular biological techniques for determining the presence of one or more of the RAMP markers as defined in claim 1 of claim 3 in a Brassica plant.
17. Method as claimed in any of the claims 14 to 16, wherein the Brassica plant is homozygous for the Quantitative Trait Loci 1 (QTL1), 3 (QTL3) and 5 (QTL5).
18. Use of a Quantitative Trait Locus 1 (QTL1l), 2 (QTL2), 3 (QTL3), 4 (QTL4), 5 (QTL5) and/or 6 (QTL6) as defined in claim 1 or claim 3 for providing a Plasmodiophora brassicae-resistant Brassica plant.
19. Use of one or more primers selected from the group consisting of SEQ ID NOs: 1 up to and including 23 for providing a Plasmodiophora brassicae-resistant Brassica plant.
20. Use of a plant as claimed in any of the claims 1 to 12, or of seeds, fruits and/or plant parts as claimed in claim 13, for providing a Plasmodiophora brassicae- resistant Brassica plant.
Applications Claiming Priority (2)
| Application Number | Priority Date | Filing Date | Title |
|---|---|---|---|
| NL2005777 | 2010-11-29 | ||
| PCT/EP2011/071190 WO2012072584A1 (en) | 2010-11-29 | 2011-11-28 | Plasmodiophora brassicae-resistant brassica plant, seeds and plant parts thereof and methods for obtaining the same |
Publications (1)
| Publication Number | Publication Date |
|---|---|
| SG190335A1 true SG190335A1 (en) | 2013-06-28 |
Family
ID=45349166
Family Applications (1)
| Application Number | Title | Priority Date | Filing Date |
|---|---|---|---|
| SG2013038500A SG190335A1 (en) | 2010-11-29 | 2011-11-28 | Plasmodiophora brassicae-resistant brassica plant, seeds and plant parts thereof and methods for obtaining the same |
Country Status (13)
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|---|---|
| US (1) | US9516823B2 (en) |
| EP (1) | EP2645849A1 (en) |
| JP (1) | JP6329767B2 (en) |
| KR (1) | KR101973213B1 (en) |
| CN (1) | CN103313595B (en) |
| AR (1) | AR084031A1 (en) |
| AU (1) | AU2011335101B2 (en) |
| BR (1) | BR112013013078B1 (en) |
| CA (1) | CA2818203C (en) |
| EA (1) | EA028715B1 (en) |
| MX (1) | MX349122B (en) |
| SG (1) | SG190335A1 (en) |
| WO (1) | WO2012072584A1 (en) |
Families Citing this family (3)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| EP2745679A1 (en) * | 2012-12-21 | 2014-06-25 | Rijk Zwaan Zaadteelt en Zaadhandel B.V. | Brassica plants resistant to clubroot |
| CN108588264B (en) * | 2018-06-08 | 2021-05-28 | 西南大学 | Molecular marker and primer for identifying cabbage clubroot disease resistance and application of molecular marker and primer |
| CA3129911A1 (en) * | 2019-02-15 | 2020-08-20 | BASF Agricultural Solutions Seed US LLC | Clubroot resistant brassica plants |
Family Cites Families (6)
| Publication number | Priority date | Publication date | Assignee | Title |
|---|---|---|---|---|
| GB0217406D0 (en) * | 2002-07-26 | 2002-09-04 | Syngenta Participations Ag | Disease resistant brassicas |
| JP4366494B2 (en) * | 2002-10-16 | 2009-11-18 | 独立行政法人農業・食品産業技術総合研究機構 | Microsatellite marker for detection of resistance genes against clubroot clubroot and its utilization |
| JP4469992B2 (en) * | 2003-12-16 | 2010-06-02 | 三重県 | Selection marker for clubroot resistant rapeseed |
| KR20080043164A (en) * | 2006-11-13 | 2008-05-16 | 대한민국(관리부서:농촌진흥청) | Identification of clubroot resistance gene using rapd marker in chines cabbage |
| NL2000622C2 (en) * | 2007-05-01 | 2008-11-04 | Bejo Zaden Bv | Brassica oleracea plants with resistance to albugo candida. |
| KR101095220B1 (en) * | 2008-12-15 | 2011-12-20 | 주식회사 농우바이오 | DNA marker associated with resistance of cabbage clubroot disease and uses thereof |
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2011
- 2011-11-28 EA EA201390792A patent/EA028715B1/en not_active IP Right Cessation
- 2011-11-28 WO PCT/EP2011/071190 patent/WO2012072584A1/en active Application Filing
- 2011-11-28 CA CA2818203A patent/CA2818203C/en active Active
- 2011-11-28 MX MX2013005963A patent/MX349122B/en active IP Right Grant
- 2011-11-28 KR KR1020137016634A patent/KR101973213B1/en active IP Right Grant
- 2011-11-28 BR BR112013013078-4A patent/BR112013013078B1/en active IP Right Grant
- 2011-11-28 JP JP2013540411A patent/JP6329767B2/en active Active
- 2011-11-28 AU AU2011335101A patent/AU2011335101B2/en active Active
- 2011-11-28 CN CN201180057412.3A patent/CN103313595B/en active Active
- 2011-11-28 US US13/989,977 patent/US9516823B2/en active Active
- 2011-11-28 EP EP11796647.3A patent/EP2645849A1/en active Pending
- 2011-11-28 SG SG2013038500A patent/SG190335A1/en unknown
- 2011-11-29 AR ARP110104435A patent/AR084031A1/en active IP Right Grant
Also Published As
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| CN103313595B (en) | 2015-12-16 |
| EA028715B1 (en) | 2017-12-29 |
| AU2011335101B2 (en) | 2016-05-12 |
| KR101973213B1 (en) | 2019-04-26 |
| JP2013544520A (en) | 2013-12-19 |
| KR20130132881A (en) | 2013-12-05 |
| BR112013013078A2 (en) | 2016-08-09 |
| BR112013013078B1 (en) | 2020-10-13 |
| US9516823B2 (en) | 2016-12-13 |
| EA201390792A1 (en) | 2013-10-30 |
| CA2818203A1 (en) | 2012-06-07 |
| WO2012072584A1 (en) | 2012-06-07 |
| MX2013005963A (en) | 2013-09-13 |
| EP2645849A1 (en) | 2013-10-09 |
| AR084031A1 (en) | 2013-04-17 |
| JP6329767B2 (en) | 2018-05-23 |
| AU2011335101A1 (en) | 2013-06-13 |
| US20130305407A1 (en) | 2013-11-14 |
| CN103313595A (en) | 2013-09-18 |
| MX349122B (en) | 2017-07-12 |
| CA2818203C (en) | 2020-03-31 |
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